Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 112 of 344
Found at i:37949181 original size:79 final size:77
Alignment explanation
Indices: 37949009--37949192 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 77
37948999 GTGCTAAGTG
* *
37949009 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGG
**
37949074 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * * *
37949088 ACTAAATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATA-TCCGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAA
*
37949152 GGCATTTGAACGAGTT
62 GGCATTGGAACGAGTT
* *
37949168 GCTATATCCGGTTAAATTCCGAAGG
1 ACTATATCCGGTT-AAGTCCGAAGG
37949193 TACGTGATTC
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 54 0.62
80 30 0.34
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:37950609 original size:13 final size:13
Alignment explanation
Indices: 37950591--37950617 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37950581 GAAGCAATTA
37950591 CACACGGGCGTGT
1 CACACGGGCGTGT
37950604 CACACGGGCGTGT
1 CACACGGGCGTGT
37950617 C
1 C
37950618 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:37956502 original size:39 final size:39
Alignment explanation
Indices: 37956406--37956586 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
37956396 ATGATGTCCG
* *
37956406 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
37956445 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
37956485 AGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTG
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC-C
*
37956525 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAA--CC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC--TAATTCC
*
37956564 GGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
37956587 AACGAGTTGC
Statistics
Matches: 121, Mismatches: 10, Indels: 21
0.80 0.07 0.14
Matches are distributed among these distances:
39 35 0.29
40 71 0.59
41 12 0.10
42 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:37956608 original size:79 final size:78
Alignment explanation
Indices: 37956402--37956609 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 78
37956392 TCGAATGATG
* *
37956402 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTG-CTATATCCGG-TTAAGATCCGAAGGCAT
37956465 TTGTGCGAGTTACTAA
63 TTGTGCGAGTTACTAA
* * * * *
37956481 TTCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATC-CGGTTAAGAT-CCGAAGGCAT
37956544 TTGTGCGAGTTACTGTAA
63 TTGTGCGAGTTAC--TAA
* **
37956562 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATATCCGGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGTTAA
37956610 ATTTCGAAGG
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
78 1 0.01
79 58 0.55
80 44 0.42
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAA
Found at i:37968768 original size:45 final size:44
Alignment explanation
Indices: 37968704--37968831 Score: 172
Period size: 45 Copynumber: 2.9 Consensus size: 44
37968694 GTTGTACAGT
* *
37968704 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGGC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGC-GGTGAGAC
* *
37968749 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATG-CGGTGAGAC
*
37968794 ATT-TTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCGGTGA
37968832 ATAAATTTGG
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
41 6 0.08
42 5 0.06
43 14 0.18
44 8 0.10
45 43 0.56
46 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (44 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCGGTGAGAC
Found at i:37971454 original size:45 final size:45
Alignment explanation
Indices: 37971390--37971519 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
37971380 GTTGTACAGT
* *
37971390 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
37971435 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
37971480 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
37971520 ATAAATTTGG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 12 0.15
44 14 0.18
45 53 0.67
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:37979489 original size:45 final size:45
Alignment explanation
Indices: 37979425--37979554 Score: 174
Period size: 45 Copynumber: 2.9 Consensus size: 45
37979415 GTTGTACAGT
* *
37979425 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
37979470 ATTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
37979515 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATACCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
37979555 ATAAATTCAG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
43 11 0.14
44 14 0.18
45 51 0.67
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:37986277 original size:19 final size:19
Alignment explanation
Indices: 37986253--37986292 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
37986243 GTGCGAGTAA
37986253 GACCATGGCATCGATATGT
1 GACCATGGCATCGATATGT
37986272 GACCATGGCATCGATATGT
1 GACCATGGCATCGATATGT
37986291 GA
1 GA
37986293 TTCCGATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (19 bp):
GACCATGGCATCGATATGT
Found at i:37993220 original size:39 final size:40
Alignment explanation
Indices: 37993125--37993347 Score: 232
Period size: 39 Copynumber: 5.7 Consensus size: 40
37993115 TTGAATGATG
*
37993125 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
37993163 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37993204 TCCGGGCTAAG-CCCGAAGGCAATTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37993243 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
*
37993283 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
37993321 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37993348 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.01
39 83 0.53
40 61 0.39
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37993261 original size:78 final size:80
Alignment explanation
Indices: 37993127--37993347 Score: 233
Period size: 79 Copynumber: 2.8 Consensus size: 80
37993117 GAATGATGTC
* * * * * *
37993127 CGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCTGGACTAAGAT-CCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCATTT
37993189 GTGCGAGATACT-AATT
64 GTGCGAGATACTAAATT
* *
37993205 CCGGGCTAAG-CCCGAAGGCAATTGTGTGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 -CGGGCTAAGTCCCGAAGGCAATTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
37993266 TGTGCGAGTTACTAAATT
63 TGTGCGAGATACTAAATT
* * *
37993284 CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
37993348 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 42 0.35
79 56 0.47
80 21 0.17
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATACTAAATT
Found at i:37999940 original size:30 final size:30
Alignment explanation
Indices: 37999905--37999964 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
37999895 GATGAATACA
37999905 AAAAAAAAATGTGTGTAGTTGTTTCCCCCC
1 AAAAAAAAATGTGTGTAGTTGTTTCCCCCC
37999935 AAAAAAAAATGTGTGTAGTTGTTTCCCCCC
1 AAAAAAAAATGTGTGTAGTTGTTTCCCCCC
37999965 CCCATTGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
AAAAAAAAATGTGTGTAGTTGTTTCCCCCC
Found at i:38001240 original size:39 final size:40
Alignment explanation
Indices: 38001145--38001367 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
38001135 TTGAATGATG
*
38001145 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-ATTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38001183 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
38001224 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38001263 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
38001302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
38001341 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38001368 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38001331 original size:79 final size:81
Alignment explanation
Indices: 38001145--38001367 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
38001135 TTGAATGATG
* * *
38001145 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAATTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
38001207 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
38001224 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
38001285 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
38001302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
38001366 TG
66 TG
38001368 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
78 47 0.37
79 55 0.43
80 25 0.20
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:38001389 original size:79 final size:79
Alignment explanation
Indices: 38001145--38001400 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
38001135 TTGAATGATG
* * * *
38001145 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-ATTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
38001206 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
38001224 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
38001288 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
38001302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
38001365 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
38001382 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38001401 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:38005349 original size:43 final size:41
Alignment explanation
Indices: 38005194--38005350 Score: 111
Period size: 43 Copynumber: 3.7 Consensus size: 41
38005184 TGTGTTTTCG
*
38005194 TGTAAGACCACATCTGGGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACATCTAGGACGTTGGCATCGA-TT-TGA-TTACA
** * * *** * * *
38005238 TGTAAGACCATGTCTAGGACATCGATTTCATATTTGATTTCG
1 TGTAAGACCACATCTAGGACGTTGGCATC-GATTTGATTACA
38005280 TGTAAGACC-CTATCTAGGACAG-TGGCATCGATGTTCGATTACA
1 TGTAAGACCAC-ATCTAGGAC-GTTGGCATCGAT-TT-GATTACA
* *
38005323 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACATCTAGGACGTTGGCAT
38005351 TGTACGAGCT
Statistics
Matches: 83, Mismatches: 23, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
41 2 0.02
42 26 0.31
43 30 0.36
44 24 0.29
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACATCTAGGACGTTGGCATCGATTTGATTACA
Found at i:38011111 original size:40 final size:40
Alignment explanation
Indices: 38011051--38011271 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
38011041 TATTCGGATG
38011051 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38011091 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* **
38011131 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** ** * *
38011171 ATATCCGGGCTAAGTCCAAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
38011211 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
38011251 ATATTC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38011272 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 12 0.08
40 147 0.92
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:38014381 original size:10 final size:11
Alignment explanation
Indices: 38014363--38014437 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 11
38014353 ATACTGTTAT
38014363 ACATGATATG-
1 ACATGATATGC
*
38014373 ACATAATATGC
1 ACATGATATGC
38014384 ACATGATATG-
1 ACATGATATGC
** *
38014394 TTATGAGATGC
1 ACATGATATGC
38014405 ACATGATATGC
1 ACATGATATGC
* *
38014416 -TATGATATAC
1 ACATGATATGC
* *
38014426 TCATTATATGC
1 ACATGATATGC
38014437 A
1 A
38014438 TGGGTTGGGT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
10 24 0.50
11 24 0.50
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:38014419 original size:21 final size:21
Alignment explanation
Indices: 38014363--38014420 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
38014353 ATACTGTTAT
* *
38014363 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
*
38014384 ACATGATATGTTATGAGATGC
1 ACATGATATGCTATGAGATGC
38014405 ACATGATATGCTATGA
1 ACATGATATGCTATGA
38014421 TATACTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:38022698 original size:27 final size:27
Alignment explanation
Indices: 38022666--38022843 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
38022656 ATATTGAGTC
* *
38022666 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
38022693 CACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38022720 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38022748 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
38022775 CGTACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
38022802 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38022829 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38022844 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38025642 original size:26 final size:25
Alignment explanation
Indices: 38025595--38025644 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38025585 TTATAATATC
* * *
38025595 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
38025620 AAAAATGACCATTATACCTCCTAGG
1 AAAAATGACCATTATACC-CCTAGG
38025645 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:38025710 original size:11 final size:11
Alignment explanation
Indices: 38025681--38025733 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
38025671 ATATTGTTAT
38025681 ACATGATATG-
1 ACATGATATGC
*
38025691 ACATAATATGC
1 ACATGATATGC
38025702 ACATGATATG-
1 ACATGATATGC
** *
38025712 GTATGAGATGC
1 ACATGATATGC
38025723 ACATGATATGC
1 ACATGATATGC
38025734 TATGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (11 bp):
ACATGATATGC
Found at i:38025737 original size:21 final size:21
Alignment explanation
Indices: 38025681--38025738 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
38025671 ATATTGTTAT
* *
38025681 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
*
38025702 ACATGATATGGTATGAGATGC
1 ACATGATATGCTATGAGATGC
38025723 ACATGATATGCTATGA
1 ACATGATATGCTATGA
38025739 TATACTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:38030119 original size:29 final size:29
Alignment explanation
Indices: 38030082--38030138 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
38030072 TAATTTGGGC
*
38030082 TAAATTGTGAAAATAAGAAATTG-AGGGAT
1 TAAAATGTGAAAA-AAGAAATTGTAGGGAT
* *
38030111 TAAAATGTGAATAAATAAATTGTAGGGA
1 TAAAATGTGAAAAAAGAAATTGTAGGGA
38030139 CTTGTATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (29 bp):
TAAAATGTGAAAAAAGAAATTGTAGGGAT
Found at i:38032886 original size:59 final size:59
Alignment explanation
Indices: 38032794--38032931 Score: 249
Period size: 59 Copynumber: 2.3 Consensus size: 59
38032784 TGTTGTCGAG
38032794 ATTACCAGTCTAGGTTAAATCCCTTACAATGACATTCACTCTCATAAGTTCAGATCTGA
1 ATTACCAGTCTAGGTTAAATCCCTTACAATGACATTCACTCTCATAAGTTCAGATCTGA
*
38032853 ATTACCAGTCTAGGTTAAATCCCTTACAATGACATTCACTCTCATAAGTTCGGATCTGA
1 ATTACCAGTCTAGGTTAAATCCCTTACAATGACATTCACTCTCATAAGTTCAGATCTGA
* *
38032912 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCTAGGTTAAAT
38032932 TCAGTCCTTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 76 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (59 bp):
ATTACCAGTCTAGGTTAAATCCCTTACAATGACATTCACTCTCATAAGTTCAGATCTGA
Found at i:38048231 original size:49 final size:47
Alignment explanation
Indices: 38048128--38048292 Score: 267
Period size: 47 Copynumber: 3.5 Consensus size: 47
38048118 CATACATATC
* **
38048128 TCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
38048175 TCACATTGGCCATTCGGCCTTATCACACATATATTCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAC--ATATGCATGTTCACATTCA
38048224 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
38048271 TCACATTGGCCATTAGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
38048293 CCTCATGTAT
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 64 0.58
49 46 0.42
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:38052256 original size:40 final size:40
Alignment explanation
Indices: 38052200--38052597 Score: 492
Period size: 40 Copynumber: 10.0 Consensus size: 40
38052190 GAATACACAT
* * * * *
38052200 CACCAGCATGATTGCTCTTTGGGACCTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
38052240 CACCAACACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
38052280 CTCTAGCACAAATGCTCTCCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
38052320 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
38052360 CTCTAGCACAAATGCTCTTCGAGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
38052400 CACCAGCACGAATGCTCTTCAGG-CTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
38052439 CACTAGCACAAATGCTCTTCGGGATTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
38052479 CACCAGCACCAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
38052519 CACTAGCATGAATGCTTTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
38052559 CACCAGCACGAATGCTTTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
38052598 TAACTCTCAA
Statistics
Matches: 302, Mismatches: 55, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 34 0.11
40 268 0.89
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:38054157 original size:25 final size:25
Alignment explanation
Indices: 38054128--38054204 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 25
38054118 ATTCTACCTT
38054128 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
38054153 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
38054175 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
38054200 ATCAC
1 ATCAC
38054205 GTTGGCCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 11 0.28
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:38054176 original size:47 final size:47
Alignment explanation
Indices: 38054107--38054320 Score: 365
Period size: 47 Copynumber: 4.5 Consensus size: 47
38054097 CATACATATC
* **
38054107 TCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
38054154 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
38054201 TCACGTTGGCCATTCGGCCTTATCACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAC--ATATGCATGTTCACATTCA
38054250 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
38054297 TCACATTGGCCATTAGGCCTTATC
1 TCACATTGGCCATTCGGCCTTATC
38054321 TCATGTATAC
Statistics
Matches: 159, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 113 0.71
49 46 0.29
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:38054252 original size:96 final size:94
Alignment explanation
Indices: 38054107--38054320 Score: 365
Period size: 96 Copynumber: 2.3 Consensus size: 94
38054097 CATACATATC
* **
38054107 TCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
38054172 CTTATCACACATATGCATGTTCACATTCA
66 CTTATCACACATATGCATGTTCACATTCA
*
38054201 TCACGTTGGCCATTCGGCCTTATCACACATATATGCATGTTCACATTCATCACATTGGCCATTCG
1 TCACATTGGCCATTCGGCCTTATCACAC--ATATGCATGTTCACATTCATCACATTGGCCATTCG
38054266 GCCTTATCACACATATGCATGTTCACATTCA
64 GCCTTATCACACATATGCATGTTCACATTCA
*
38054297 TCACATTGGCCATTAGGCCTTATC
1 TCACATTGGCCATTCGGCCTTATC
38054321 TCATGTATAC
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 24 0.21
96 88 0.79
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATATGCATGTTCACATTCA
Found at i:38058309 original size:27 final size:26
Alignment explanation
Indices: 38058257--38058315 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
38058247 CCACATATAT
*
38058257 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
38058283 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
38058310 ATATCT
1 ATATCT
38058316 AGCAGCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:38067065 original size:27 final size:26
Alignment explanation
Indices: 38067035--38067164 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 26
38067025 GACCCCCAAC
38067035 TTGTAAGATTACTGAAATACCCCTGAT
1 TTGTAA-ATTACTGAAATACCCCTGAT
* *
38067062 TTGTGAAATTA-TCGAAACA-CCTTCGAT
1 TTGT-AAATTACT-GAAATACCCCT-GAT
* * * *
38067089 TTGTGAAATTACCGAAATACCTCTAAC
1 TTGT-AAATTACTGAAATACCCCTGAT
*
38067116 TTGTAAAATTACTGAAATACCCCTGGT
1 TTGT-AAATTACTGAAATACCCCTGAT
38067143 TTGTAAAATTACTGAAATACCC
1 TTGT-AAATTACTGAAATACCC
38067165 TATAGTATAA
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.05
27 76 0.90
28 4 0.05
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (26 bp):
TTGTAAATTACTGAAATACCCCTGAT
Found at i:38067175 original size:26 final size:25
Alignment explanation
Indices: 38067119--38067195 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
38067109 CTCTAACTTG
* * *
38067119 TAAAATTACTGAAATACCCCTGGTTTG
1 TAAAATTACTGAAATA-CCCT-ATGTA
38067146 TAAAATTACTGAAATACCCTATAGTA
1 TAAAATTACTGAAATACCCTAT-GTA
*
38067172 TAAAATTACCGAAATACCTCTATG
1 TAAAATTACTGAAATACC-CTATG
38067196 GGGTAAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
25 1 0.02
26 23 0.52
27 20 0.45
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (25 bp):
TAAAATTACTGAAATACCCTATGTA
Found at i:38067202 original size:27 final size:26
Alignment explanation
Indices: 38067094--38067204 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
38067084 TCGATTTGTG
***
38067094 AAATTACCGAAATACCTCTAACTTGTA
1 AAATTACCGAAATACC-CTATGGTGTA
* *
38067121 AAATTACTGAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTATGG--TGTA
* * *
38067148 AAATTACTGAAATACCCTATAGTATA
1 AAATTACCGAAATACCCTATGGTGTA
*
38067174 AAATTACCGAAATACCTCTATGGGGTA
1 AAATTACCGAAATACC-CTATGGTGTA
38067201 AAAT
1 AAAT
38067205 GACTGTTTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
26 19 0.28
27 47 0.69
28 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (26 bp):
AAATTACCGAAATACCCTATGGTGTA
Found at i:38067539 original size:22 final size:22
Alignment explanation
Indices: 38067511--38067569 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
38067501 TAATCAGATT
38067511 ATGGCTCTGTGCCAACCTAAAA
1 ATGGCTCTGTGCCAACCTAAAA
* * * **
38067533 ATGGCTCTATGCCATCTTAACT
1 ATGGCTCTGTGCCAACCTAAAA
*
38067555 ATGGCTTTGTGCCAA
1 ATGGCTCTGTGCCAA
38067570 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (22 bp):
ATGGCTCTGTGCCAACCTAAAA
Found at i:38067959 original size:32 final size:32
Alignment explanation
Indices: 38067923--38067991 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
38067913 GTTTATGAGA
*
38067923 TCTGTCACT-GTATTGGGCTTAGGCCCAGTTG-T
1 TCTGTCACTGGT-TTGGGC-TAGGCCCAATTGAT
* *
38067955 TCTGTTATTGGTTTGGGCTAGGCCCAATTGAT
1 TCTGTCACTGGTTTGGGCTAGGCCCAATTGAT
38067987 TCTGT
1 TCTGT
38067992 TATGGGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.34
32 19 0.59
33 2 0.06
ACGTcount: A:0.13, C:0.19, G:0.28, T:0.41
Consensus pattern (32 bp):
TCTGTCACTGGTTTGGGCTAGGCCCAATTGAT
Found at i:38068751 original size:48 final size:49
Alignment explanation
Indices: 38068648--38068871 Score: 194
Period size: 47 Copynumber: 4.7 Consensus size: 49
38068638 GCGGTGTTAC
* * * **
38068648 AGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCACA-TTATG-AG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACATAGAGATGTAG
* * *
38068694 AGCTAGTGTAAGACCATGTCTGGGACATGGCAACGTCATTGAGATG-AG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGATGTAG
* * * * *
38068742 TGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGATGTAG
* * ** * *
38068788 AGCCAGTGTAAGACCATGTTTGGGACATTCCATCGACACAGATATGCTAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGATG-TAG
*
38068838 AGCTTGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC
38068872 AGCACCTGCA
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
46 36 0.25
47 44 0.31
48 31 0.22
49 2 0.01
50 29 0.20
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGATGTAG
Found at i:38071129 original size:18 final size:18
Alignment explanation
Indices: 38071063--38071135 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
38071053 AAGAAATAAT
* *
38071063 ATTTTAAAAATTAATGAC
1 ATTTTGAAAATGAATGAC
* * *
38071081 ATTTT-AATATGATTAAC
1 ATTTTGAAAATGAATGAC
* *
38071098 TTTTTGACAAATGACTGAC
1 ATTTTGA-AAATGAATGAC
*
38071117 ATTTTGAAAATGAACGAC
1 ATTTTGAAAATGAATGAC
38071135 A
1 A
38071136 CGACTTAAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
17 12 0.29
18 16 0.38
19 14 0.33
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (18 bp):
ATTTTGAAAATGAATGAC
Found at i:38073160 original size:13 final size:13
Alignment explanation
Indices: 38073142--38073166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38073132 CTTTGCTAAA
38073142 TGAATTATGCTTG
1 TGAATTATGCTTG
38073155 TGAATTATGCTT
1 TGAATTATGCTT
38073167 AGTACAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TGAATTATGCTTG
Found at i:38093792 original size:46 final size:46
Alignment explanation
Indices: 38093739--38093863 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
38093729 TGAGTATCCA
*
38093739 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCC-G
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTG
*
38093785 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCTG
* *
38093831 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38093864 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
45 2 0.03
46 72 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCTG
Found at i:38100106 original size:27 final size:27
Alignment explanation
Indices: 38100075--38100279 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
38100065 TAAATTGTAC
38100075 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38100102 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38100128 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38100156 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
38100184 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
38100211 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38100238 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38100265 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38100280 GACTAAAAAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38100270 original size:109 final size:109
Alignment explanation
Indices: 38100075--38100279 Score: 277
Period size: 109 Copynumber: 1.9 Consensus size: 109
38100065 TAAATTGTAC
* *
38100075 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
38100140 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
38100184 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** * *
38100248 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAATTGACCATACAGCACTAAGTGTGCG
38100280 GACTAAAAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 1 0.01
109 81 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:38120761 original size:27 final size:27
Alignment explanation
Indices: 38120731--38120908 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38120721 ATATTGAGTC
* * * *
38120731 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38120758 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38120785 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38120813 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38120840 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38120867 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38120894 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38120909 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38120870 original size:82 final size:81
Alignment explanation
Indices: 38120752--38120907 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38120742 TGCTATATAA
* *
38120752 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38120817 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38120834 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38120898 CACTTAGTGC
65 CACTTAGTGC
38120908 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38125998 original size:18 final size:19
Alignment explanation
Indices: 38125971--38126006 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38125961 GAACTTATCA
*
38125971 ATGCATATTTTA-AAAATG
1 ATGCACATTTTATAAAATG
38125989 ATGCACATTTTATAAAAT
1 ATGCACATTTTATAAAAT
38126007 TTCCTATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
ATGCACATTTTATAAAATG
Found at i:38126178 original size:47 final size:48
Alignment explanation
Indices: 38126095--38126201 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 48
38126085 ATCGCTGATT
*
38126095 TGCAGATAAACTGCCAATAATAACACTTTGTGGACAAGCCACCACATA
1 TGCAGATAAACTGCCAATAATAACACATTGTGGACAAGCCACCACATA
* * * *
38126143 TGCAGATATACTGCCATTGA-AACACATTGTGGACAAGCCACCACTGATT
1 TGCAGATAAACTGCCAATAATAACACATTGTGGACAAGCCACCAC--ATA
38126192 TGCAGATAAA
1 TGCAGATAAA
38126202 ATGCAACATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 23 0.45
48 17 0.33
49 11 0.22
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (48 bp):
TGCAGATAAACTGCCAATAATAACACATTGTGGACAAGCCACCACATA
Found at i:38133677 original size:48 final size:48
Alignment explanation
Indices: 38133601--38133866 Score: 169
Period size: 47 Copynumber: 5.6 Consensus size: 48
38133591 GATAAATTGT
* * * *
38133601 CGATGCCATGTCCCTGATATGGTCTTACACTAGCTGTCATATATGTGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATATGTGTGC
* * * *
38133651 TGATGCATGTCCCAGACATGTCTTACACTAG--CACA-ACTCT-TAGT--
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA-TATGT-GTGC
* ** * * * *
38133695 CGATGCGTGTCTGAGACAAGTCTTACACTGGCTATC-TCTATCGAG-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATAT-GTGTGC
* * * * * *
38133742 CGATGCATGTCCTAGACATGTCTTACTCTGGCACTC--ATCTCTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGTGTGC
*
38133788 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATTTG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATATGTGTGC
* *
38133836 TGAAGCATGTCCCAGACATGTCTTACACTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGG
38133867 TGCACAAATC
Statistics
Matches: 165, Mismatches: 37, Indels: 32
0.71 0.16 0.14
Matches are distributed among these distances:
44 25 0.15
45 4 0.02
46 29 0.18
47 56 0.34
48 32 0.19
49 14 0.08
50 5 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGTGTGC
Found at i:38133853 original size:94 final size:92
Alignment explanation
Indices: 38133601--38133866 Score: 272
Period size: 94 Copynumber: 2.9 Consensus size: 92
38133591 GATAAATTGT
* * * *
38133601 CGATGCCATGTCCCTGATATGGTCTTACACTAGCTGTCATATATGTGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCTGATGCATGTCCCAG
* *
38133666 ACATGTCTTACACTAGCACAACTCTTAGT
64 ACATGTCTTACACTGGCACAACTCTTAGC
* ** * * * *
38133695 CGATG-CGTGTCTGAGACA-AGTCTTACACTGGCTATCTC-T-ATCGAGGCCGATGCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGCTGATGCATGTCCCA
* *
38133756 GACATGTCTTACTCTGGCAC-TCATCTCTATGC
63 GACATGTCTTACACTGGCACAAC-TCT-TA-GC
* *
38133788 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATTTGGCTGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGAC
38133853 ATGTCTTACACTGG
66 ATGTCTTACACTGG
38133867 TGCACAAATC
Statistics
Matches: 137, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
90 1 0.01
91 37 0.27
92 16 0.12
93 19 0.14
94 49 0.36
95 15 0.11
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGAC
ATGTCTTACACTGGCACAACTCTTAGC
Found at i:38135833 original size:27 final size:27
Alignment explanation
Indices: 38135803--38135980 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38135793 ATATTGAGTC
* * * *
38135803 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38135830 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38135857 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38135885 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38135912 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38135939 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38135966 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38135981 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38135942 original size:82 final size:81
Alignment explanation
Indices: 38135824--38135979 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38135814 TGCTATATAA
* *
38135824 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38135889 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38135906 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38135970 CACTTAGTGC
65 CACTTAGTGC
38135980 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38136479 original size:12 final size:12
Alignment explanation
Indices: 38136462--38136487 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38136452 ATGGCATACT
38136462 TATGTATATATA
1 TATGTATATATA
38136474 TATGTATATATA
1 TATGTATATATA
38136486 TA
1 TA
38136488 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:38143034 original size:39 final size:39
Alignment explanation
Indices: 38142980--38143057 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
38142970 CATGAAAAAC
* *
38142980 TTAGAAAATTTCATGCATCAAGGCTCCACATGCCTGTGT
1 TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
38143019 TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
1 TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
38143058 GAATATAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (39 bp):
TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
Found at i:38144200 original size:47 final size:43
Alignment explanation
Indices: 38144093--38144208 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 43
38144083 TATCTGTACT
38144093 GATGCATGTCCCAGACATGTCTTACACTAGTACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGTA-AACTCTTAGCC
** * * * *
38144137 GATGTGTGTCCGAGACACGTCTTACACTAGCT-ATCTCTGTCGAAGTC
1 GATGCATGTCCCAGACATGTCTTACACTAG-TAAACTCT-T---AGCC
38144184 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
38144209 TCTGGCACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 5 0.09
44 27 0.47
45 1 0.02
47 24 0.42
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTTACACTAGTAAACTCTTAGCC
Found at i:38144239 original size:47 final size:46
Alignment explanation
Indices: 38144183--38144308 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
38144173 CTGTCGAAGT
* * *
38144183 CGATGCATGTCCCAGACATGTCTTACTCTGGCACTCAT-CTCTGTAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG-AC
* * *
38144229 CGATGCCATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTGAC
*
38144277 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
38144309 GCACAAATCA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 17 0.25
47 28 0.41
48 21 0.30
49 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGAC
Found at i:38156833 original size:46 final size:46
Alignment explanation
Indices: 38156779--38156954 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
38156769 TGTTTGGGCA
*
38156779 TCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
** * * *
38156825 TCTAAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
38156870 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
38156918 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38156955 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 61 0.57
47 25 0.23
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:38156934 original size:93 final size:93
Alignment explanation
Indices: 38156775--38156946 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
38156765 AGGATGTTTG
* * *
38156775 GGCATCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCAAATGTCTAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
38156840 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
38156868 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
38156933 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38156947 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38159904 original size:15 final size:15
Alignment explanation
Indices: 38159884--38159931 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
38159874 CATAGTATCG
*
38159884 TATCCTGGGTTTCTT
1 TATCCTGGATTTCTT
*
38159899 TATCCTGGATCTCTT
1 TATCCTGGATTTCTT
*
38159914 TATTCTGGATTTCTT
1 TATCCTGGATTTCTT
38159929 TAT
1 TAT
38159932 TCGGTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.12, C:0.19, G:0.15, T:0.54
Consensus pattern (15 bp):
TATCCTGGATTTCTT
Found at i:38159942 original size:14 final size:15
Alignment explanation
Indices: 38159888--38159942 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
38159878 GTATCGTATC
* *
38159888 CTGGGTTTCTTTATC
1 CTGGATTTCTTTATT
*
38159903 CTGGATCTCTTTATT
1 CTGGATTTCTTTATT
38159918 CTGGATTTCTTTATT
1 CTGGATTTCTTTATT
*
38159933 C-GGTTTTCTT
1 CTGGATTTCTT
38159943 GTTATCTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 8 0.23
15 27 0.77
ACGTcount: A:0.09, C:0.18, G:0.16, T:0.56
Consensus pattern (15 bp):
CTGGATTTCTTTATT
Found at i:38161797 original size:37 final size:37
Alignment explanation
Indices: 38161737--38161810 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
38161727 TATTACGAAA
* * *
38161737 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
38161774 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
38161811 CCCTTAGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:38162011 original size:47 final size:47
Alignment explanation
Indices: 38161933--38162528 Score: 879
Period size: 47 Copynumber: 12.6 Consensus size: 47
38161923 CCCTTCGGGA
** * * * * *
38161933 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38161980 AC-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 -CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162027 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162074 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162121 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162170 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162219 CTTATCACCCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162266 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162313 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162360 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162407 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162454 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162501 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ACATATACACTTTCACAT
38162529 ATGGGTTTAA
Statistics
Matches: 515, Mismatches: 28, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 405 0.79
48 1 0.00
49 108 0.21
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38163842 original size:37 final size:37
Alignment explanation
Indices: 38163782--38163857 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
38163772 TATTACGAAA
* * *
38163782 TCTTACCCAGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
* *
38163819 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
38163856 TC
1 TC
38163858 CTTAGAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (37 bp):
TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
Found at i:38164056 original size:47 final size:47
Alignment explanation
Indices: 38163978--38164524 Score: 835
Period size: 47 Copynumber: 11.6 Consensus size: 47
38163968 CCCTTCGGGA
* * * * * *
38163978 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38164025 AC-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 -CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38164072 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38164119 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38164166 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38164215 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38164262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38164309 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38164356 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38164403 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
38164450 CTTATCACGCATATAAACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38164497 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
38164525 ATGGGTTTAA
Statistics
Matches: 463, Mismatches: 31, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 403 0.87
48 1 0.00
49 58 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38167995 original size:40 final size:40
Alignment explanation
Indices: 38167963--38168228 Score: 125
Period size: 40 Copynumber: 6.7 Consensus size: 40
38167953 CCAGCATGAT
*
38167963 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACCTAGCCCGGATATAACACCAGCACAAA
* * *** * *
38168003 TGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCACGAA
1 TGCTCTTCGGAACCTAGCCCGGATATAACACCAGCACAAA
** * *
38168043 TGCTCTTCGGAATTTAGCCCGGATTTAGTAAC-TC-GCACCAA
1 TGCTCTTCGGAACCTAGCCCGGA--TA-TAACACCAGCACAAA
* * * ** *
38168084 TGC-CTTCAGG-TCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCTCTTC-GGAACCTAGCCCGGATATAAC-ACCAGCACAAA
** * * *
38168124 TGC-CTTCGGGTCTTAGCCCGGATATATCAATTC-GCACAAA
1 TGCTCTTCGGAACCTAGCCCGGATATAAC-A-CCAGCACAAA
** * * * *
38168164 TGC-CTTCGGGTCTTAGCCCGGATATAATCACTAGCTCAAT
1 TGCTCTTCGGAACCTAGCCCGGATATAA-CACCAGCACAAA
* *
38168204 TGC-CTTCGGGACTTAGCCCGGATAT
1 TGCTCTTCGGAACCTAGCCCGGATAT
38168229 CATTCAAATG
Statistics
Matches: 183, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 2 0.01
40 161 0.88
41 12 0.07
42 2 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACCTAGCCCGGATATAACACCAGCACAAA
Found at i:38168099 original size:80 final size:78
Alignment explanation
Indices: 38167977--38168228 Score: 244
Period size: 80 Copynumber: 3.2 Consensus size: 78
38167967 CTTCGGGACC
* * * **
38167977 TAGCCCGGATATAAC-AC-CAGCACAAATGCTCTTC-GGAACTTAGTCCGGATACCTCACTAGCA
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCAGG-TCTTAGCCCGGATAAATCACTAGCA
38168039 CGAA-TGCTCTTCGGAATT
63 C-AATTGC-CTTCGG-ATT
* * * *
38168057 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCAGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATAAATC-ACTAGCAC
*
38168121 AATTGCCTTCGGGTCT
64 AATTGCCTTCGGAT-T
* * *
38168137 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCTCA
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATA-AATCACTAGCACA
*
38168202 ATTGCCTTCGGGACT
65 ATTGCCTTC-GGATT
38168217 TAGCCCGGATAT
1 TAGCCCGGATAT
38168229 CATTCAAATG
Statistics
Matches: 144, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
79 2 0.01
80 113 0.78
81 28 0.19
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (78 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATAAATCACTAGCACAA
TTGCCTTCGGATT
Found at i:38168557 original size:29 final size:29
Alignment explanation
Indices: 38168518--38168596 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38168508 CTTAATAATC
*
38168518 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38168548 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38168577 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38168597 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38168639 original size:43 final size:43
Alignment explanation
Indices: 38168578--38168766 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
38168568 TGCATTTCAA
38168578 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38168621 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
38168664 GCTCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38168707 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38168750 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38168767 TGAAAACCAA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38170678 original size:37 final size:37
Alignment explanation
Indices: 38170618--38170693 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
38170608 TATTACGAAA
* * *
38170618 TCTTACCCAGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
* *
38170655 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
38170692 TC
1 TC
38170694 CTTAGAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (37 bp):
TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
Found at i:38170892 original size:47 final size:47
Alignment explanation
Indices: 38170814--38171293 Score: 782
Period size: 47 Copynumber: 10.2 Consensus size: 47
38170804 CCCTTCGGGA
* * * * * *
38170814 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38170861 AC-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 -CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38170908 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
38170955 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38171002 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38171051 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38171098 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38171145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38171192 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38171239 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38171286 CTTATCAC
1 CTTATCAC
38171294 CATTATCACA
Statistics
Matches: 411, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 366 0.89
48 1 0.00
49 43 0.10
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38175777 original size:93 final size:93
Alignment explanation
Indices: 38175618--38175789 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
38175608 AGGATGTTTG
* * *
38175618 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAG
*
38175683 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * ** * *
38175711 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAG
38175776 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
38175790 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:38181632 original size:55 final size:54
Alignment explanation
Indices: 38181545--38181799 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
38181535 ATTAGGGTTT
* * *
38181545 AAGGATACCGTGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
38181600 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
38181655 AAAGG-TCCCAAGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
38181708 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * **
38181757 AAGGATACCACGTAAGACCATGACAAGTTATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
38181800 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 65 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:38181751 original size:108 final size:110
Alignment explanation
Indices: 38181556--38181752 Score: 310
Period size: 108 Copynumber: 1.8 Consensus size: 110
38181546 AGGATACCGT
*
38181556 GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCAT
1 GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
*
38181621 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCAA
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCAA
* * *
38181666 GTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACCA
1 GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACCA
*
38181728 TGTCAAGACATGGCAATGGTAAGTT
65 TGTCAAGACATGGCAATGATAAGTT
38181753 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.60
109 7 0.09
110 22 0.28
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCAA
Found at i:38182017 original size:16 final size:16
Alignment explanation
Indices: 38181996--38182026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38181986 ATAAATTTGA
38181996 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38182012 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38182027 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38185501 original size:43 final size:42
Alignment explanation
Indices: 38185388--38185537 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 42
38185378 CAATGCCAAC
* * *
38185388 GTCCCAGACGTGGTCTTACATGT-AATTAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATA-CGATGCCA-T
* * *
38185431 GTCCCA-ACCAGGGTCTTATAC-AAAATCAAATACGATGCCGAT
1 GTCCCAGA-CATGGTCTTACACGTAAATCAAATACGATGCC-AT
*
38185473 GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCA-AA-TACGATGCC-AT
* *
38185517 ATCCCAGACGT-GTCTTACACG
1 GTCCCAGACATGGTCTTACACG
38185538 ATAACACATA
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
42 26 0.30
43 41 0.47
44 19 0.22
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAT
Found at i:38187243 original size:75 final size:76
Alignment explanation
Indices: 38187114--38187363 Score: 283
Period size: 75 Copynumber: 3.3 Consensus size: 76
38187104 TAGGCAAATG
* * *
38187114 CTTTCATCAGTTAATTTGACTAGTGC-AGGGAGCACCATTATACTCG-TCGATTTATCCGACTAG
1 CTTTCATCAGTTTATCTGACTAGTGCTAGGCA-CACCATTATACTCGTTCGATTTATCCGACTAG
**
38187177 CATTGGGCGTAA
65 CATTGGGCACAA
* *
38187189 CTTTCGTCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCG-TTTATTCGACTAGC
1 CTTTCATCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGATTTATCCGACTAGC
* *
38187253 ACTGGACACAA
66 ATTGGGCACAA
* * * * * *
38187264 CTTTCATAAATTTACCAGACTAGTGCTAGGCACACCGTTATACTCGTT-GATTTATCCAACTAGC
1 CTTTCATCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGATTTATCCGACTAGC
*
38187328 GTTGGGCACAA
66 ATTGGGCACAA
** * *
38187339 CTTTCATTTGTTTATTTGGCTAGTG
1 CTTTCATCAGTTTATCTGACTAGTG
38187364 ATGGGAACAT
Statistics
Matches: 145, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
74 1 0.01
75 137 0.94
76 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (76 bp):
CTTTCATCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGATTTATCCGACTAGC
ATTGGGCACAA
Found at i:38187392 original size:150 final size:150
Alignment explanation
Indices: 38187131--38187400 Score: 326
Period size: 150 Copynumber: 1.8 Consensus size: 150
38187121 CAGTTAATTT
* * ** *
38187131 GACTAGTGCAGGGAGCACCATTATACTCGTCGATTTATCCGACTAGCATTGGGCGTAACTTTCGT
1 GACTAGTGCAGGCAGCACCATTATACTCGTCGATTTATCCAACTAGCATTGGGCACAACTTTCAT
* * *
38187196 CAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGTTTATTCGACTAGCACTGGACA
66 CAGTTTATCTGACTAGTGATAGGAACACCATTATACTCGTTCGTTTATCCGACTAGCACTGGACA
38187261 CAACTTTCATAAATTTACCA
131 CAACTTTCATAAATTTACCA
* * *
38187281 GACTAGTGCTAGGCA-CACCGTTATACTCGTTGATTTATCCAACTAGCGTTGGGCACAACTTTCA
1 GACTAGTGC-AGGCAGCACCATTATACTCGTCGATTTATCCAACTAGCATTGGGCACAACTTTCA
** * * * ** ** * *
38187345 TTTGTTTATTTGGCTAGTGATGGGAACATTATTATGTTTGTTGGTTTATCCGACTA
65 TCAGTTTATCTGACTAGTGATAGGAACACCATTATACTCGTTCGTTTATCCGACTA
38187401 ACATGGGGCC
Statistics
Matches: 97, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
150 93 0.96
151 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (150 bp):
GACTAGTGCAGGCAGCACCATTATACTCGTCGATTTATCCAACTAGCATTGGGCACAACTTTCAT
CAGTTTATCTGACTAGTGATAGGAACACCATTATACTCGTTCGTTTATCCGACTAGCACTGGACA
CAACTTTCATAAATTTACCA
Found at i:38191260 original size:11 final size:11
Alignment explanation
Indices: 38191222--38191263 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
38191212 AAAGCATGTG
*
38191222 ATTATGTGATT
1 ATTAAGTGATT
*
38191233 ATTAAGCGATT
1 ATTAAGTGATT
*
38191244 A-GAAGTGATT
1 ATTAAGTGATT
38191254 ATTAAGTGAT
1 ATTAAGTGAT
38191264 ATGTGATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (11 bp):
ATTAAGTGATT
Found at i:38192508 original size:50 final size:50
Alignment explanation
Indices: 38192447--38192706 Score: 254
Period size: 50 Copynumber: 5.2 Consensus size: 50
38192437 TTCGGCCACG
** * * *
38192447 TGTGTAGTACTAAGTTTAGGCTTCTACGTGTACCAAATCGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
* * * * * *
38192497 TGTGTAGTACTAAGTGCAGGCTACTATGCGAACCAGATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACA
* * *
38192548 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
* * * * *
38192598 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGCTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TT-AGGTCACA
* * * * *
38192649 TGTGTAGTACTAAGTACATGCTACTACGTGTATTCA-ATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAGTTAGGTCACA
38192699 TGTGTAGT
1 TGTGTAGT
38192707 GTAACACCCC
Statistics
Matches: 169, Mismatches: 36, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 88 0.52
51 78 0.46
52 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
Found at i:38192575 original size:101 final size:101
Alignment explanation
Indices: 38192443--38192706 Score: 377
Period size: 101 Copynumber: 2.6 Consensus size: 101
38192433 GGTTTTCGGC
** *
38192443 CACGTGTGTAGTACTAAGTTTAGGCTTCTACGTGTACCAAATCGTTAGGTCACATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATCGTTAGGTCACATGTGTAGTACT
*
38192508 AAGTGCAGGCTACTATGCGAACCAGATAGCTTCGAT
66 AAGTGCAGGCTACTATGCGAACCAGATAGCTTCAAT
* * * * *
38192544 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATCGTTAGGTCACATGTGTAGTACT
* *
38192609 AAGTGCAGGCTACTATGCGTACCTGATAGCTTCAAT
66 AAGTGCAGGCTACTATGCGAACCAGATAGCTTCAAT
* * * *
38192645 CACGTGTGTAGTACTAAGTACATGCTACTACGTGTATTC-AATGGTTAGGTCACGTGTGTAGT
1 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTA-CCAAATCGTTAGGTCACATGTGTAGT
38192707 GTAACACCCC
Statistics
Matches: 144, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
101 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATCGTTAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGAACCAGATAGCTTCAAT
Found at i:38207453 original size:46 final size:46
Alignment explanation
Indices: 38207401--38207571 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
38207391 GTTGAGCATT
38207401 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
* * * *
38207447 CAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--C
* * * *
38207494 CGAACTTGTTGAGTTTAGTCCGAGTTCATTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
* *
38207540 CGAGCTCGTTGAGTTGAGTCCGAGTTTACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38207572 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 54 0.54
47 25 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
Found at i:38207560 original size:93 final size:93
Alignment explanation
Indices: 38207396--38207565 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
38207386 GGATGGTTGA
* *
38207396 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
38207461 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
38207489 GCATCCGAACTTGTTGAGTTTAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
38207554 TGAGTCCGAGTT
66 TGAGTCCGAGTT
38207566 TACTTAGGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38207831 original size:19 final size:20
Alignment explanation
Indices: 38207796--38207833 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38207786 ATAAGGTGGT
38207796 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38207816 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38207834 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38211438 original size:57 final size:57
Alignment explanation
Indices: 38211377--38211490 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
38211367 AGGGAAATAG
*
38211377 TAACACATGTTTTCAAAGATGAACGAATTCACTTCAACTAATTTTTTGGCCATATAT
1 TAACACATGTTTTCAAAGATGAACGAATTCACTTCAACTAATGTTTTGGCCATATAT
38211434 TAACACATGTTTTCAAAGATGAACGAATTCACTTCAACTAATGTTTTGGCCATATAT
1 TAACACATGTTTTCAAAGATGAACGAATTCACTTCAACTAATGTTTTGGCCATATAT
38211491 ATGGCCTATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (57 bp):
TAACACATGTTTTCAAAGATGAACGAATTCACTTCAACTAATGTTTTGGCCATATAT
Found at i:38211751 original size:16 final size:16
Alignment explanation
Indices: 38211710--38211755 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
38211700 GGTAAGTTTT
38211710 CTTTAGATT-TG-AAA
1 CTTTAGATTGTGAAAA
* * *
38211724 CTATAAACTGTGAAAA
1 CTTTAGATTGTGAAAA
38211740 CTTTAGATTGTGAAAA
1 CTTTAGATTGTGAAAA
38211756 TGATAGATAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
CTTTAGATTGTGAAAA
Found at i:38217451 original size:43 final size:43
Alignment explanation
Indices: 38217383--38217497 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
38217373 TTTGAGATAT
* * ** * *
38217383 GATTTCGTGTAAGACCACGCCTGGGACATTAGCATCGACTT-GA
1 GATTACGTGTAAGACCATGTTTGGGACATTAGAATCGA-TTAAA
* *
38217426 GA-TATCGTGTAAGACCGTGTTTGGGACATTGGAATCGATTAAA
1 GATTA-CGTGTAAGACCATGTTTGGGACATTAGAATCGATTAAA
38217469 GATTACGTGTAAGACCATGTTTGGGACAT
1 GATTACGTGTAAGACCATGTTTGGGACAT
38217498 CATCATCGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.05
43 55 0.92
44 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTTTGGGACATTAGAATCGATTAAA
Found at i:38217547 original size:42 final size:42
Alignment explanation
Indices: 38217501--38217587 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
38217491 GGGACATCAT
* * **
38217501 CATCG-TATTTAATTTCATGTAAGACCTTGTCAGGGACAGTGG
1 CATCGATA-TTAATTACATATAAGACCACGTCAGGGACAGTGG
* * *
38217543 CATCGATATTGATTACATATAAGACCACGTCTGGGACATTGG
1 CATCGATATTAATTACATATAAGACCACGTCAGGGACAGTGG
38217585 CAT
1 CAT
38217588 TGTACAAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
CATCGATATTAATTACATATAAGACCACGTCAGGGACAGTGG
Found at i:38223745 original size:93 final size:93
Alignment explanation
Indices: 38223633--38223805 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
38223623 CGCCCATAAG
* * *
38223633 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAATGAACTCGGACTCAACTCA
*
38223698 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
* *
38223726 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAATGAACTCGGACTCAACTCA
*
38223791 ACGAGTTCAGATGCC
66 ACGAGCTCAGATGCC
38223806 CAAATATCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:38223798 original size:46 final size:46
Alignment explanation
Indices: 38223634--38223795 Score: 191
Period size: 46 Copynumber: 3.5 Consensus size: 46
38223624 GCCCATAAGC
* ** *
38223634 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
* * * * ** *
38223680 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCATCCAT-AAAT
*
38223727 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
38223773 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
38223796 TTCAGATGCC
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 59 0.63
47 35 0.37
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAAT
Found at i:38223820 original size:46 final size:45
Alignment explanation
Indices: 38223679--38223820 Score: 126
Period size: 46 Copynumber: 3.1 Consensus size: 45
38223669 CATCCATAAG
* * *
38223679 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-A
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCCAA
* * * * *
38223726 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAA
* *
38223772 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATATCCCAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCCAA
38223818 TGA
1 TGA
38223821 CATGTCACTT
Statistics
Matches: 75, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.05
46 37 0.49
47 30 0.40
48 4 0.05
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCCAA
Found at i:38241616 original size:8 final size:8
Alignment explanation
Indices: 38241598--38241628 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
38241588 TAAGTATTGG
38241598 TTTTA-TT
1 TTTTATTT
38241605 TTTTATTT
1 TTTTATTT
38241613 TTTTATTT
1 TTTTATTT
38241621 TTTTATTT
1 TTTTATTT
38241629 GGTTAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:38244552 original size:26 final size:27
Alignment explanation
Indices: 38244495--38244559 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
38244485 AGTGAGCACT
**
38244495 ATCGGGAATATCACAAAGAGCCAATTA
1 ATCGGGAAGCTCACAAAGAGCCAATTA
* *
38244522 A-CGGGAAGCTCACGAAGAGCC-TTTA
1 ATCGGGAAGCTCACAAAGAGCCAATTA
*
38244547 ATCGGGATGCTCA
1 ATCGGGAAGCTCA
38244560 TAAGAGCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.12
26 27 0.84
27 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCAATTA
Found at i:38245667 original size:27 final size:27
Alignment explanation
Indices: 38245637--38245749 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
38245627 TAAGTTGTAG
*
38245637 AATTATCGAAATACCCCTGTAAGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAA
* * * *
38245664 AATTACCAAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAA
* *
38245691 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAA
* * *
38245718 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAA
38245745 AATTA
1 AATTA
38245750 CCATTTTGCC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAA
Found at i:38246510 original size:26 final size:27
Alignment explanation
Indices: 38246481--38246540 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
38246471 CCACATATAT
*
38246481 ATATCTGT-TCTGGTGGCCTAGTCACA
1 ATATCTGTATCTGGTGACCTAGTCACA
* *
38246507 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGTCACA
38246534 ATATCTG
1 ATATCTG
38246541 GCAGCCTCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGTCACA
Found at i:38262993 original size:6 final size:6
Alignment explanation
Indices: 38262982--38263047 Score: 80
Period size: 6 Copynumber: 10.8 Consensus size: 6
38262972 TAAAAACATT
* *
38262982 ATCAGA ATCAGA ATCAGA ATCAGA ATTATGTG A-CAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
*
38263031 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
38263048 GACACAGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
5 1 0.02
6 48 0.92
7 2 0.04
8 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:38263055 original size:37 final size:37
Alignment explanation
Indices: 38262982--38263057 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
38262972 TAAAAACATT
* * **
38262982 ATCAGAATCAGAATCAGAATCAGAATTATGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGGACACAGA
*
38263019 ATCAGAATCAGAATCAGAATCAGTATCAGGACACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGGACACAGA
38263056 AT
1 AT
38263058 AAAAAATTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (37 bp):
ATCAGAATCAGAATCAGAATCAGAATCAGGACACAGA
Found at i:38263237 original size:27 final size:28
Alignment explanation
Indices: 38263207--38263308 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 28
38263197 GCTCAGTTAT
*
38263207 CAGATATTGTGACAGAGTCACCA-AATA
1 CAGATATTGTGACAGAGCCACCAGAATA
*
38263234 CAGATATTGTGGCAGAGCCACCAGAAT-
1 CAGATATTGTGACAGAGCCACCAGAATA
* *
38263261 -AGATATTTGTGGCATAGCCACCAGAA-A
1 CAGATA-TTGTGACAGAGCCACCAGAATA
* * *
38263288 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGACAGAGCCAC
38263309 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.08
27 53 0.80
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (28 bp):
CAGATATTGTGACAGAGCCACCAGAATA
Found at i:38264339 original size:27 final size:27
Alignment explanation
Indices: 38263975--38264331 Score: 452
Period size: 27 Copynumber: 13.3 Consensus size: 27
38263965 TACCTCACAA
* *
38263975 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
38264002 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
38264029 GGTA-TTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
38264055 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
38264082 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
38264109 GGTATTCCGGTAATTCTACCCTAAAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
38264136 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
38264163 GGTATTTCAGTAATGCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
38264190 GGTATTCCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
38264217 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
38264244 GGTATTTCGGTAATT-T-CACAAATTAGG
1 GGTATTTCGGTAATTCTAC-CCTA-CAGG
* * ** *
38264271 GGTATTTTGGTAATTTTA-CAAAGTAGG
1 GGTATTTCGGTAATTCTACCCTA-CAGG
* *
38264298 GGTATTTTGGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
38264325 GGTATTT
1 GGTATTT
38264332 TAGTAATTTC
Statistics
Matches: 293, Mismatches: 31, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.00
26 27 0.09
27 262 0.89
28 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:38264460 original size:81 final size:81
Alignment explanation
Indices: 38264344--38264567 Score: 310
Period size: 81 Copynumber: 2.8 Consensus size: 81
38264334 GTAATTTCAT
* * **
38264344 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAAGGT
1 AATCGAGGGTGAAACGGTAATTTTATAAATC-GAGGGTAAAATGGTAATTTTACAAATCGAAGGT
38264408 AAAACGGTAATTCT-GTA
65 AAAACGGTAATT-TGGTA
* * * *
38264425 AATCGAGGGTGAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTACAAATCGAGGGTA
1 AATCGAGGGTGAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTACAAATCGAAGGTA
*
38264490 AAACTGTAATTTGGTA
66 AAACGGTAATTTGGTA
* *
38264506 AATTGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACAAATC-AAGG
1 AATCGAGGGTGAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTACAAATCGAAGG
38264568 GCATTTCAGT
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
80 4 0.03
81 121 0.96
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTGAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTACAAATCGAAGGTA
AAACGGTAATTTGGTA
Found at i:38264562 original size:27 final size:27
Alignment explanation
Indices: 38264334--38264568 Score: 249
Period size: 27 Copynumber: 8.7 Consensus size: 27
38264324 GGGTATTTTA
*
38264334 GTAATTTCAT-AATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
38264360 GTAATTTTGTAAA-CTGAGGGTAAAATG
1 GTAATTTTATAAATC-GAGGGTAAAACG
* *
38264387 GTAATTTTGTAAATCGAAGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* * * *
38264414 GTAATTCTGTAAATCGAGGGTGAAACA
1 GTAATTTTATAAATCGAGGGTAAAACG
**
38264441 GTAATTTTATAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACG
* * *
38264468 GTAATTCTACAAATCGAGGGTAAAACT
1 GTAATTTTATAAATCGAGGGTAAAACG
** * *
38264495 GTAATTTGGTAAATTGAGGGTGAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
38264522 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
38264549 GTAATTTTACAAATCAAGGG
1 GTAATTTTATAAATCGAGGG
38264569 CATTTCAGTA
Statistics
Matches: 173, Mismatches: 33, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
26 9 0.05
27 163 0.94
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAACG
Found at i:38266139 original size:17 final size:16
Alignment explanation
Indices: 38266117--38266148 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
38266107 GTATATACTA
38266117 AAAACTATAGTTAAACC
1 AAAACTATAG-TAAACC
38266134 AAAACTATAGTAAAC
1 AAAACTATAGTAAAC
38266149 TACTTGAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAACTATAGTAAACC
Found at i:38272584 original size:49 final size:49
Alignment explanation
Indices: 38272512--38272743 Score: 216
Period size: 49 Copynumber: 4.7 Consensus size: 49
38272502 AAGCTATCTT
* *
38272512 GTACACATAGTAGTCTGCACTTAGTACTACACATGCAACCAATTATTC-G
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTA-TCGG
** ** *
38272561 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCGG
* * * *
38272611 ATACACGTAGTAGCCTACACTTAGTACTACACACGTG-ATCGAAGTTATCGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCGG
** * * * * **
38272662 GTATGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATAATCCA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCGG
* *
38272711 GTACATGTAGTAGCCTGCACTTAGTACCACACA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACA
38272744 CGTGACCGCA
Statistics
Matches: 146, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
49 71 0.49
50 40 0.27
51 33 0.23
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCGG
Found at i:38272745 original size:100 final size:101
Alignment explanation
Indices: 38272568--38272748 Score: 267
Period size: 100 Copynumber: 1.8 Consensus size: 101
38272558 TCGGTACACG
** * *
38272568 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCAGATACACGTAGTAGCCTACACTT
*
38272633 AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
66 AGTACCACACACGTGATCGAAGTTATCGGGTATGCA
* * *
38272669 TAGTAGCCTGCACTTAGTACTACACATACGACC-AATAATCCAG-TACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAAT-CAGATACACGTAGTAGCCTACACT
38272732 TAGTACCACACACGTGA
65 TAGTACCACACACGTGA
38272749 CCGCACAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 38 0.54
101 33 0.46
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCAGATACACGTAGTAGCCTACACTT
AGTACCACACACGTGATCGAAGTTATCGGGTATGCA
Found at i:38275926 original size:18 final size:19
Alignment explanation
Indices: 38275889--38275927 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
38275879 CTTACACATC
*
38275889 ATCATATACGTATCATTACA
1 ATCATATAC-TATCAGTACA
38275909 ATCATATA-TATCAGTACA
1 ATCATATACTATCAGTACA
38275927 A
1 A
38275928 GCAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCATATACTATCAGTACA
Found at i:38277811 original size:40 final size:40
Alignment explanation
Indices: 38277580--38277804 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
38277570 TTGAATGATG
* * * *
38277580 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
38277620 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38277660 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38277699 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38277739 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38277780 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38277805 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38277827 original size:119 final size:119
Alignment explanation
Indices: 38277587--38277837 Score: 305
Period size: 119 Copynumber: 2.1 Consensus size: 119
38277577 ATGTCCGGGC
*
38277587 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATTTGTGCGAG
* * *
38277652 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGAGT
* * * *
38277706 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGATTAAGAT-CCGAAGGCATTTGTGCG
* * *
38277769 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-AGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGAGT
* *
38277825 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
38277838 TACGTGATTT
Statistics
Matches: 114, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 78 0.68
120 33 0.29
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGAGT
Found at i:38283706 original size:28 final size:28
Alignment explanation
Indices: 38283643--38283793 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
38283633 ATATTAAGTC
*
38283643 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38283670 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
38283698 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38283726 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38283754 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38283783 CGCACACTTAG
1 CGCACACTTAG
38283794 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38293536 original size:27 final size:27
Alignment explanation
Indices: 38293499--38293650 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
38293489 TAAATTGTGC
*
38293499 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
38293526 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
*
38293554 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
38293581 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAAT-TGACTATGT
* *
38293609 AGCACTAAGTGTGCGAATTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
38293636 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38293651 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 66 0.57
28 50 0.43
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:38293564 original size:55 final size:55
Alignment explanation
Indices: 38293499--38293650 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
38293489 TAAATTGTGC
*
38293499 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
38293554 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
38293609 AGCACTAAGTGTGCGAATTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCG
38293651 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:38295427 original size:28 final size:28
Alignment explanation
Indices: 38295364--38295514 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
38295354 ATATTAAGTC
* *
38295364 CGCACAGTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38295391 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
38295419 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38295447 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38295475 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38295504 CGCACACTTAG
1 CGCACACTTAG
38295515 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 21 0.19
28 75 0.67
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38305341 original size:49 final size:49
Alignment explanation
Indices: 38305269--38305500 Score: 232
Period size: 49 Copynumber: 4.7 Consensus size: 49
38305259 AAGCTATCTT
* *
38305269 GTACACATAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATTC-G
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCGG
* ** *
38305318 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCGG
* * * * *
38305368 ATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGG
** * * * **
38305419 GTATGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATAATCCA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGG
* * *
38305468 ATACATGTAGTAGCCTGCACTTAGTACCACACA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACA
38305501 CGTGACCGCA
Statistics
Matches: 149, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
49 70 0.47
50 44 0.30
51 35 0.23
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGG
Found at i:38305500 original size:100 final size:101
Alignment explanation
Indices: 38305325--38305505 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 101
38305315 TCGGTACACG
** * **
38305325 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCCAATACACGTAGTAGCCTACACTT
*
38305390 AGTACTACACACGTGATCGAAGTTATCGGGTATGCA
66 AGTACCACACACGTGATCGAAGTTATCGGGTATGCA
* * *
38305426 TAGTAGCCTGCACTTAGTACTACACATACGACC-AATAATCCAATACATGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCCAATACACGTAGTAGCCTACACTT
38305490 AGTACCACACACGTGA
66 AGTACCACACACGTGA
38305506 CCGCACAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 40 0.56
101 31 0.44
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCCAATACACGTAGTAGCCTACACTT
AGTACCACACACGTGATCGAAGTTATCGGGTATGCA
Found at i:38310566 original size:40 final size:40
Alignment explanation
Indices: 38310335--38310559 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
38310325 TTGAATGATG
* * * *
38310335 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38310375 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38310415 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38310454 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38310494 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38310535 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38310560 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38313150 original size:40 final size:40
Alignment explanation
Indices: 38313067--38313331 Score: 313
Period size: 40 Copynumber: 6.7 Consensus size: 40
38313057 TTGAATGCTG
* * * *
38313067 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAA
* * * **
38313107 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTGTTAAA
*
38313147 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
38313187 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* *
38313227 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* * **
38313267 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* *
38313306 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
38313332 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.17
40 155 0.78
41 9 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:38321164 original size:38 final size:38
Alignment explanation
Indices: 38321008--38321265 Score: 279
Period size: 39 Copynumber: 6.6 Consensus size: 38
38320998 TTGAATGCTG
* * * ** *
38321008 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT-TTTAAA
* * **
38321048 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAG-TTTTAAA
38321088 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTTTAAA
38321127 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTTTAAA
38321165 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-TTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTT-TTAAA
* * *
38321204 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTT-TTAAA
* *
38321243 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38321266 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 67 0.34
39 73 0.37
40 46 0.23
41 10 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTTTAAA
Found at i:38321179 original size:77 final size:77
Alignment explanation
Indices: 38321047--38321265 Score: 300
Period size: 77 Copynumber: 2.8 Consensus size: 77
38321037 AAGTGAATAT
* * *
38321047 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAG-TTCTAAATCCGGGTTAAGTCCCGAAGGCAT
38321111 TCGTGCGAGTT-TTAA
63 TCGTGCGA-TTGTTAA
*
38321126 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTCTAAATCCGGGTTAAGTCCCGAAGGCATTCG
38321191 TGCGATTGTTAA
66 TGCGATTGTTAA
* * * *
38321203 ATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTT-CTAAATCCGGGTTAAGTCCCGAAGGCATT
38321266 TGAACGAGGA
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
76 2 0.02
77 93 0.73
78 15 0.12
79 18 0.14
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (77 bp):
ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTCTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGATTGTTAA
Found at i:38321289 original size:77 final size:77
Alignment explanation
Indices: 38321047--38321300 Score: 244
Period size: 77 Copynumber: 3.3 Consensus size: 77
38321037 AAGTGAATAT
* * * *
38321047 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAG-TTCTAAATCCGGGCTAAGTCCCGAAGGCAT
** ***
38321111 TCGTGCGAGTTTTAA
63 TCGAACGAGAGCTAA
* *
38321126 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTCTAAATCCGGGCTAAGTCCCGAAGGCATTCG
** ** *
38321191 TGCGATTGTTAA
66 AACGAGAGCTAA
* * * *
38321203 ATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA-CCGGGCTATGTCCCGAAGGCATTT
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTT-CTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
38321267 GAACGAGGAGCTAT
65 GAACGA-GAGCTAA
*
38321281 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
38321301 TACGTGATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
77 112 0.74
78 22 0.14
79 18 0.12
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (77 bp):
ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTCTAAATCCGGGCTAAGTCCCGAAGGCATTCG
AACGAGAGCTAA
Found at i:38337025 original size:27 final size:27
Alignment explanation
Indices: 38336988--38337138 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
38336978 TAAATTGTGC
* *
38336988 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
38337015 AGCACTAAGTGTGC-AGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
38337042 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38337069 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
38337097 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38337124 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38337139 GACTTAATAT
Statistics
Matches: 116, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
26 1 0.01
27 87 0.75
28 28 0.24
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:38337107 original size:82 final size:81
Alignment explanation
Indices: 38336988--38337138 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
38336978 TAAATTGTGC
*
38336988 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGC-AGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAG-TTGACTATATAGCACTAAGT
38337052 GTGCGAGTTGACTATGT
65 GTGCGAGTTGACTATGT
* * * *
38337069 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGT
38337134 GTGCG
65 GTGCG
38337139 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 44 0.70
83 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTG
TGCGAGTTGACTATGT
Found at i:38337111 original size:55 final size:55
Alignment explanation
Indices: 38336988--38337138 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
38336978 TAAATTGTGC
* *
38336988 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGC-AGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
38337042 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
38337097 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
38337139 GACTTAATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 39 0.44
55 50 0.56
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:38345172 original size:28 final size:27
Alignment explanation
Indices: 38345113--38345264 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
38345103 TAAATTGTGC
* *
38345113 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
38345140 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
38345168 TGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38345195 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
38345223 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
38345250 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38345265 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:38345179 original size:55 final size:55
Alignment explanation
Indices: 38345113--38345264 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
38345103 TAAATTGTGC
* *
38345113 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
38345168 TGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
38345223 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
38345265 GACTTAATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:38347040 original size:28 final size:28
Alignment explanation
Indices: 38346986--38347127 Score: 205
Period size: 28 Copynumber: 5.1 Consensus size: 28
38346976 CTGCACAGTC
38346986 AGTGCTATATAATC-AACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
38347013 AGTGCTATATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
* *
38347041 AGTGCTACATAATCAAGCTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
*
38347069 AGTGCTACATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
* * * *
38347097 AGTGCTGTACAATTTAAACCCGCACACTT
1 AGTGCTATATAA-TCAAACTCGCACACTT
38347126 AG
1 AG
38347128 CGCCAATCTC
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 14 0.13
28 75 0.71
29 16 0.15
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
AGTGCTATATAATCAAACTCGCACACTT
Done.